-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_42

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for snap_scaffold_42-snap.4-T1
Valid prediction for snap_scaffold_42-snap.5-T1
Couldn't classify 31011, 31088
Sorry, prediction GlimmerHMM_glimmerT_61025-T1 fails validation.
(ATG)	 CC	25651-25705	GT	TGG
(TCT)	 AG	26125-26270	GT	AGG
(ATC)	 AG	31011-31088	GT	TGG
-recovered GlimmerHMM_glimmerT_61025-T1, initial, 25651, 25705
-recovered GlimmerHMM_glimmerT_61025-T1, internal, 26125, 26270
-recovered GlimmerHMM_glimmerT_61025-T1, internal, 31011, 31088
Valid prediction for GeneMark_model.106225_t
Couldn't classify 385, 470
Sorry, prediction Augustus_model.g40592.t1 fails validation.
(TTT)	 AG	385-470	GT	TGG
(GTC)	 AG	2321-2543	AT	GAA
-recovered Augustus_model.g40592.t1, terminal, 2321, 2543
-recovered Augustus_model.g40592.t1, internal, 385, 470
Valid prediction for HiQ_model.g40594.t1
Valid prediction for CodingQuarry_transcript_49334-T1
Valid prediction for snap_scaffold_42-snap.1-T1
Valid prediction for CodingQuarry_transcript_49335-T1
Valid prediction for GlimmerHMM_glimmerT_61021-T1
Valid prediction for snap_scaffold_42-snap.2-T1
Valid prediction for GeneMark_model.106223_t

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for GeneMark_model.106224_t
Valid prediction for GlimmerHMM_glimmerT_61022-T1
Valid prediction for snap_scaffold_42-snap.3-T1
Valid prediction for Augustus_model.g40593.t1
Valid prediction for GlimmerHMM_glimmerT_61024-T1
Valid prediction for GlimmerHMM_glimmerT_61023-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 32365
-exon list size: 44


building trellis

2.2    
4.3    
6.5    
8.7    
10.9    
13.0    
15.2    
17.4    
19.6    
21.7    
23.9    
26.1    
28.3    
30.4    
32.6    
34.8    
37.0    
39.1    
41.3    
43.5    
45.7    
47.8    
50.0    
52.2    
54.3    
56.5    
58.7    
60.9    
63.0    
65.2    
67.4    
69.6    
71.7    
73.9    
76.1    
78.3    
80.4    
82.6    
84.8    
87.0    
89.1    
91.3    
93.5    
95.7    
97.8    
-found 3 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 3 predictions persist after filtering for low support